BAC Information

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BAC

Clone NameMSMg01-404N19
Chromosome18 (Build37)
Map Location 16,226,110 - 16,410,131
singlet/doubletdoublet
Overlap geneLOC100040202, Ppia-ps18_172.1
Upstream geneKctd1, LOC100040151, Aqp4, LOC665473, Chst9, LOC670012, LOC100040551, EG225228
Downstream geneEG665509, Cdh2, LOC665519, 1700001G01Rik, 4921533I20Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-404N19.T7 (MSMg01no404_n19.b1)MSMg01-404N19.TJ (MSMg01no404_n19.g1)
ACCAG503429AG503430
length756754
length of high quality
(start - end)
549 (36 - 584)567 (65 - 631)
definitionCHROMAT_FILE: MSMg01no404_n19.b1 PHD_FILE: MSMg01no404_n19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:40 2005CHROMAT_FILE: MSMg01no404_n19.g1 PHD_FILE: MSMg01no404_n19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(16,409,677 - 16,410,131)(16,226,110 - 16,226,676)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTTAAG
ATTTTCCACTCTTATGACAAAGCCTACCCATTACAGCTAAATAAATAACA
ATGTCCTCGTGGTGAAGATTAAGCACACTTGTATTAATGTAAATGAGAAA
GGGATGAGACACTGTGCATTCAGCCAGTACTGGACACCAGAGAGTTAGAG
TGTGTTCTGTATGACAATGAATTCAACAACAGCAACTACTGAATTTCAAC
AAGACTTAAGACTGAGAGTATAATGCATTATTTACATGTTTTTTTTCCAA
TGCTAGGGATTGAACCCAGAAATTTGTGTATGCCAGGCAAACTCTACTAT
CGGTTCATACCTCAGGTCCTATTTTCTTTTAATTTAGTAAAATAGAATCA
ACCCACCTATAAAAATTTCAGAATTTATAGGATATATGAGGCAAAATAAA
ATAACCTTTCTGTGTATAAGAGGACGTAGAAGATAAAGATGTCAATAGCC
ATTACACATTTTGCTTAATAAATTAAGGTGTTCTAGGAAATTATAGCTTA
GACACTGCTTCCTGTCAAAGATCAATTTTTGGAAACCTTCAGATATTTAA
AACGTATGTAACATATATTATGCTTTATGCATACATATATATTCATATGT
CATCATACATTTACCCACCACCTACACCCCCCCNTACATTTTTAAAACTA
TGTTTGATAAGCTTTTTCTCTTTTCCTGGGGAGAANAATGAATGGCTACT
CCCCTC
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXTCTAACATTGGAGTTTATTTTTATGTCTAAAGATTA
CTCATTTACCAATAATAAATAAAACGCCATTTTAATTATTGTAAATCAAT
GACTTTCAATTCTATAGGCACACTACAAAACAGTGACACACAGTGAGTCA
AACTGGTCCTATACTTTGCTGGGGCTAAGGAGAAAGGAGTCAAAAGACTG
GTTTACAAATGCCAGATGACAAAGTGTAAATCTGATTCTAGTCACTGAGT
TTAGACATACTGATTTACATGTGAACTTCAAAGGTATGCACTACCGTGTC
TCTCTCTCAAGGTCAGAATCAAATAATTCATTTTAATTGAGGTCTCAGTG
ATGTTACACAGCCCAAGATGGCTGTTTTCCATTCCCAAATATGTAACAAT
CCTGAGAAGCTCCCCAGCCCAGTCTACCTTCCATCACTCCACTGGGAAAT
CTCAGTGTCTTTCTTCTCCAATTTTTAGACCATTTTTCCATCCACCTGCC
TACTGCTCCCCATAAGAGTATATCTGATCTGATTCCTATGTGGGCTTCAC
AAAATTTAGTAATCTAAGTATTTAATTTCTCCAACATAGTAATGTCTAGT
AATCTAATAATACTAGTAATCAGGTGTTTTTACTTTCATACCTGTTAAAT
AGCTTTTCCAGTCAACTTGGAAAAATAGCTATGCNTAATTTTTCTTATGT
AAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no404_n19.b1 MSMg01no404_n19.b1 CHROMAT_FILE:
MSMg01no404_n19.b1 PHD_FILE: MSMg01no404_n19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:19:40 2005
         (549 letters)



>mm_chr18_16409677_16410626
          Length = 950

 Score =  841 bits (435), Expect = 0.0
 Identities = 450/455 (98%), Gaps = 2/455 (0%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcttaag-attttccactcttatgacaaagcctacccattacagctaaataaataa 63
           ||||||||||| | ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 455 gaattcttaagaaatttccactcttatgacaaagcctacccattacagctaaataaataa 396

                                                                       
Query: 64  caatgtcctcgtggtgaagattaagcacacttgtattaatgtaaatgagaaagggatgag 123
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 395 caatgtcctcgtggtgaagattgagcacacttgtattaatgtaaatgagaaagggatgag 336

                                                                       
Query: 124 acactgtgcattcagccagtactggacaccagagagttagagtgtgttctgtatgacaat 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 335 acactgtgcattcagccagtactggacaccagagagttagagtgtgttctgtatgacaat 276

                                                                       
Query: 184 gaattcaacaacagcaactactgaatttcaacaagacttaagactgagagtataatgcat 243
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 275 gaattcaacaacagcaacaactgaatttcaacaagacttaagactgagagtataatgcat 216

                                                                       
Query: 244 tatttacatg-ttttttttccaatgctagggattgaacccagaaatttgtgtatgccagg 302
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 215 tatttacatgtttttttttccaatgctagggattgaacccagaaatttgtgtatgccagg 156

                                                                       
Query: 303 caaactctactatcggttcatacctcaggtcctattttcttttaatttagtaaaatagaa 362
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 155 caaactctactatcggttcatacctcaggtcctattttcttttaatttagtaaaatagaa 96

                                                                       
Query: 363 tcaacccacctataaaaatttcagaatttataggatatatgaggcaaaataaaataacct 422
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 95  tcaacccacctataaaaatttcagaatttataggatatatgaggcaaaataaaataacct 36

                                              
Query: 423 ttctgtgtataagaggacgtagaagataaagatgt 457
           |||||||||||||||||||||||||||||||||||
Sbjct: 35  ttctgtgtataagaggacgtagaagataaagatgt 1


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 20
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 549
Length of database: 950
Length adjustment: 10
Effective length of query: 539
Effective length of database: 940
Effective search space:   506660
Effective search space used:   506660
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)
Query= MSMg01no404_n19.g1 MSMg01no404_n19.g1 CHROMAT_FILE:
MSMg01no404_n19.g1 PHD_FILE: MSMg01no404_n19.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:19:40 2005
         (567 letters)



>mm_chr18_16225910_16226876
          Length = 967

 Score = 1058 bits (547), Expect = 0.0
 Identities = 562/567 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   tctaacattggagtttatttttatgtctaaagattactcatttaccaataataaataaaa 60
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 201 tctaacattggagtttatttttatgtctaaagattactcatttatcaataataaataaaa 260

                                                                       
Query: 61  cgccattttaattattgtaaatcaatgactttcaattctataggcacactacaaaacagt 120
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 cgccatttgaattattgtaaatcaatgactttcaattctataggcacactacaaaacagt 320

                                                                       
Query: 121 gacacacagtgagtcaaactggtcctatactttgctggggctaaggagaaaggagtcaaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gacacacagtgagtcaaactggtcctatactttgctggggctaaggagaaaggagtcaaa 380

                                                                       
Query: 181 agactggtttacaaatgccagatgacaaagtgtaaatctgattctagtcactgagtttag 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 agactggtttacaaatgccagatgacaaagtgtaaatctgattctagtcactgagtttag 440

                                                                       
Query: 241 acatactgatttacatgtgaacttcaaaggtatgcactaccgtgtctctctctcaaggtc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 acatactgatttacatgtgaacttcaaaggtatgcactaccgtgtctctctctcaaggtc 500

                                                                       
Query: 301 agaatcaaataattcattttaattgaggtctcagtgatgttacacagcccaagatggctg 360
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 501 agaatcaaataattcattttaattgaggtctcagtgatgttacacagcccaagatgactg 560

                                                                       
Query: 361 ttttccattcccaaatatgtaacaatcctgagaagctccccagcccagtctaccttccat 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 ttttccattcccaaatatgtaacaatcctgagaagctccccagcccagtctaccttccat 620

                                                                       
Query: 421 cactccactgggaaatctcagtgtctttcttctccaatttttagaccatttttccatcca 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 cactccactgggaaatctcagtgtctttcttctccaatttttagaccatttttccatcca 680

                                                                       
Query: 481 cctgcctactgctccccataagagtatatctgatctgattcctatgtgggcttcacaaaa 540
           |||||||||||||||| ||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 681 cctgcctactgctccctataagagtatatctgatctgattcctatgtgggcttcacaaca 740

                                      
Query: 541 tttagtaatctaagtatttaatttctc 567
           |||||||||||||||||||||||||||
Sbjct: 741 tttagtaatctaagtatttaatttctc 767


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 25
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 567
Length of database: 967
Length adjustment: 10
Effective length of query: 557
Effective length of database: 957
Effective search space:   533049
Effective search space used:   533049
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)